Locus 5521

Sequence ID X_DroMel_CAF1
Location 14,292,406 – 14,292,515
Length 109
Max. P 0.998432
window8958 window8959

overview

Window 8

Location 14,292,406 – 14,292,515
Length 109
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 77.89
Mean single sequence MFE -28.23
Consensus MFE -18.48
Energy contribution -18.76
Covariance contribution 0.28
Combinations/Pair 1.10
Mean z-score -1.59
Structure conservation index 0.65
SVM decision value 0.19
SVM RNA-class probability 0.626725
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14292406 109 + 22224390
---------UUUUUUUUAGCCAGU--CUUGGCGUUUUUAUUGCCGGCAAUUAAGUUAAUAGGCAAUAAAGCUUCUGGAUUUUCCAGGGGGAGGGGGGGUUGGCAAUUCCAAAAGCAGAAG
---------.........((((..--(((..(..((((((((((................))))))))))(((((((.....)))))))..)..)))..))))................. ( -31.09)
>DroPse_CAF1 8351 102 + 1
UCAGUGUUUUU-UUUUUAGCCAGUAGCUUGGCGUUUUUAUUGCCGGCAAUUAAGUUAAUAGGCAAUAAAGCUUCUGGAUUUGCCAGC---------------CAUCGCCAGAAGCAGU--
...........-......(((((....)))))...(((((((((................)))))))))((((((((...((.....---------------))...))))))))...-- ( -30.09)
>DroSec_CAF1 5355 99 + 1
---------UUU-UUUUAGCCAGU--CUUGGCGUUUUUAUUGCCGGCAAUUAAGUUAAUAGACAAUAAAGCUUCUGGAUUUUCCA------GGGGGGG---CCAAUUCCAAAAGCAGAAG
---------...-.....(((...--...)))((((((......(((......(((....))).......(((((((.....)))------))))..)---))......))))))..... ( -23.10)
>DroSim_CAF1 5851 100 + 1
---------UU--UUUUACCCAAU--CUUGGCGUUUUUAUUGCCGGCAAUUAAGUUAAAAGGCAAUAAAGCUUCUGGAUUUUCCAG----AGGGGGGG---UCAAUUCCUAAGGCAGAAU
---------..--.....(((...--........((((((((((................))))))))))(((((((.....))))----)))))).(---((.........)))..... ( -26.79)
>DroPer_CAF1 7915 105 + 1
UCAGUGUUUUUUUUUUUAGCCAGUAGCUUGGCGUUUUUAUUGCCGGCAAUUAAGUUAAUAGGCAAUAAAGCUUCUGGAUUUGCCAGC---------------CAUCGCCAGAAGCAGUGC
..................(((((....)))))...(((((((((................)))))))))((((((((...((.....---------------))...))))))))..... ( -30.09)
>consensus
_________UUUUUUUUAGCCAGU__CUUGGCGUUUUUAUUGCCGGCAAUUAAGUUAAUAGGCAAUAAAGCUUCUGGAUUUUCCAG_____GGGGGGG____CAAUUCCAAAAGCAGAAG
..................(((((....)))))...(((((((((................)))))))))((((.(((..............................))).))))..... (-18.48 = -18.76 +   0.28)

alignment

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secondary structure

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dotplot

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Window 9

Location 14,292,406 – 14,292,515
Length 109
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 77.89
Mean single sequence MFE -26.10
Consensus MFE -20.80
Energy contribution -21.00
Covariance contribution 0.20
Combinations/Pair 1.10
Mean z-score -2.94
Structure conservation index 0.80
SVM decision value 3.10
SVM RNA-class probability 0.998432
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14292406 109 - 22224390
CUUCUGCUUUUGGAAUUGCCAACCCCCCCUCCCCCUGGAAAAUCCAGAAGCUUUAUUGCCUAUUAACUUAAUUGCCGGCAAUAAAAACGCCAAG--ACUGGCUAAAAAAAA---------
.....(((((((((.((.(((..............))).)).)))))))))(((((((((................)))))))))...((((..--..)))).........--------- ( -28.33)
>DroPse_CAF1 8351 102 - 1
--ACUGCUUCUGGCGAUG---------------GCUGGCAAAUCCAGAAGCUUUAUUGCCUAUUAACUUAAUUGCCGGCAAUAAAAACGCCAAGCUACUGGCUAAAAA-AAAAACACUGA
--...((((((((...((---------------.....))...))))))))(((((((((................)))))))))...((((......))))......-........... ( -26.79)
>DroSec_CAF1 5355 99 - 1
CUUCUGCUUUUGGAAUUGG---CCCCCCC------UGGAAAAUCCAGAAGCUUUAUUGUCUAUUAACUUAAUUGCCGGCAAUAAAAACGCCAAG--ACUGGCUAAAA-AAA---------
.....(((((((((.((..---((.....------.))..)))))))))))(((((((((................)))))))))...((((..--..)))).....-...--------- ( -25.69)
>DroSim_CAF1 5851 100 - 1
AUUCUGCCUUAGGAAUUGA---CCCCCCCU----CUGGAAAAUCCAGAAGCUUUAUUGCCUUUUAACUUAAUUGCCGGCAAUAAAAACGCCAAG--AUUGGGUAAAA--AA---------
(((((......)))))..(---(((....(----((((.....))))).(((((((((((................)))))))))...))....--...))))....--..--------- ( -22.89)
>DroPer_CAF1 7915 105 - 1
GCACUGCUUCUGGCGAUG---------------GCUGGCAAAUCCAGAAGCUUUAUUGCCUAUUAACUUAAUUGCCGGCAAUAAAAACGCCAAGCUACUGGCUAAAAAAAAAAACACUGA
.....((((((((...((---------------.....))...))))))))(((((((((................)))))))))...((((......)))).................. ( -26.79)
>consensus
CUUCUGCUUUUGGAAUUG____CCCCCCC_____CUGGAAAAUCCAGAAGCUUUAUUGCCUAUUAACUUAAUUGCCGGCAAUAAAAACGCCAAG__ACUGGCUAAAAAAAA_________
.....((((((((..............................))))))))(((((((((................)))))))))...((((......)))).................. (-20.80 = -21.00 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:58 2006